arXiv subjects

Anders Ynnerman

Publications and source records attributed to Anders Ynnerman.

23 records · Page 2Linked to original sources

arXiv2019

Inviwo -- A Visualization System with Usage Abstraction Levels

The complexity of today's visualization applications demands specific visualization systems tailored for the development of these applications. Frequently, such systems utilize levels of abstraction to improve the application development process, for instance by providing a data flow network editor. Unfortunately, these abstractions result in several issues, which need to be circumvented through an abstraction-centered system design. Often, a high level of abstraction hides low level details, which makes it difficult to directly access the underlying computing platform, which would be important to achieve an optimal performance. Therefore, we propose a layer structure developed for modern and sustainable visualization systems allowing developers to interact with all contained abstraction levels. We refer to this interaction capabilities as usage abstraction levels, since we target application developers with various levels of experience. We formulate the requirements for such a system, derive the desired architecture, and present how the concepts have been exemplary realized within the Inviwo visualization system. Furthermore, we address several specific challenges that arise during the realization of such a layered architecture, such as communication between different computing platforms, performance centered encapsulation, as well as layer-independent development by supporting cross layer documentation and debugging capabilities.

cs.GR↗

arXiv2018

Binding Sites for Luminescent Amyloid Biomarkers from non-Biased Molecular Dynamics Simulations

A very stable binding site for the interaction between an pentameric oligothiophene and an amyloid-$β$(1-42) fibril has been identified by means of non-biased molecular dynamics simulations. In this site, the probe is locked in an all-trans conformation with a Coulombic binding energy of 1,200 kJ/mol due to the interactions between the anionic carboxyl groups of the probe and the cationic $ε$-amino groups in the lysine side chain. Upon binding, the conformationally restricted probes show a pronounced increase in molecular planarity. This is in-line with the observed changes in luminescence properties that serve as the foundation for their use as biomarkers.

physics.chem-ph↗

arXiv2016

Particle-in-cell simulation study of a lower-hybrid shock

The expansion of a magnetized high-pressure plasma into a low-pressure ambient medium is examined with particle-in-cell (PIC) simulations. The magnetic field points perpendicularly to the plasma's expansion direction and binary collisions between particles are absent. The expanding plasma steepens into a quasi-electrostatic shock that is sustained by the lower-hybrid (LH) wave. The ambipolar electric field points in the expansion direction and it induces together with the background magnetic field a fast E cross B drift of electrons. The drifting electrons modify the background magnetic field, resulting in its pile-up by the LH shock. The magnetic pressure gradient force accelerates the ambient ions ahead of the LH shock, reducing the relative velocity between the ambient plasma and the LH shock to about the phase speed of the shocked LH wave, transforming the LH shock into a nonlinear LH wave. The oscillations of the electrostatic potential have a larger amplitude and wavelength in the magnetized plasma than in an unmagnetized one with otherwise identical conditions. The energy loss to the drifting electrons leads to a noticable slowdown of the LH shock compared to that in an unmagnetized plasma.

physics.plasm-ph↗

arXiv2013

A Unified Framework for Multi-Sensor HDR Video Reconstruction

One of the most successful approaches to modern high quality HDR-video capture is to use camera setups with multiple sensors imaging the scene through a common optical system. However, such systems pose several challenges for HDR reconstruction algorithms. Previous reconstruction techniques have considered debayering, denoising, resampling (align- ment) and exposure fusion as separate problems. In contrast, in this paper we present a unifying approach, performing HDR assembly directly from raw sensor data. Our framework includes a camera noise model adapted to HDR video and an algorithm for spatially adaptive HDR reconstruction based on fitting of local polynomial approximations to observed sensor data. The method is easy to implement and allows reconstruction to an arbitrary resolution and output mapping. We present an implementation in CUDA and show real-time performance for an experimental 4 Mpixel multi-sensor HDR video system. We further show that our algorithm has clear advantages over existing methods, both in terms of flexibility and reconstruction quality.

cs.CV↗

arXiv2012

From individual to population: Challenges in Medical Visualization

In this paper, we first give a high-level overview of medical visualization development over the past 30 years, focusing on key developments and the trends that they represent. During this discussion, we will refer to a number of key papers that we have also arranged on the medical visualization research timeline. Based on the overview and our observations of the field, we then identify and discuss the medical visualization research challenges that we foresee for the coming decade.

cs.GR↗